fun.imagej.img
concat-imgs
(concat-imgs imgs)
Concatenate images along dimension+1. All images
are assumed to be of the same size.
confusion-img
(confusion-img target pred)
Return an img that encodes the confusion matrix at each pixel.
confusion-matrix
(confusion-matrix target pred)
Return the confusion matrix from 2 images. The first image is taken to be the target and the second is the prediction.
create-img-like
(create-img-like img tpe)(create-img-like img)
Create an Img like the input.
difference
(difference img1 img2)
Take the difference between two images.
dimension-split
(dimension-split rai d)
Split an image along the hyperslices of a dimension.
Returns a View
dimensions
(dimensions input)
Return the number of pixels in each dimension for something
with Dimensions.
draw-maxima
(draw-maxima input maxima)
Draw maxima into an image.
elmul
(elmul img1 img2)
Subtract the second image from the first (destructive).
fill-boundary
(fill-boundary img bx by bz tx ty tz fill-value)
Fill boundary pixels with the given value.
(bx,by,bz) - 'bottom' point. these are the small values. exclusive
(tx,ty,tz) - 'top' point. these are the big values. exclusive
locations outside these points are assigned fill-value
filter-vals
(filter-vals f img1)
Create a Bit Img that according to a function f, which should return true/false.
find-maxima
(find-maxima input)(find-maxima input shp radius)
get-depth
(get-depth img)
Return the depth of the image.
get-height
(get-height img)
Return the height of the img.
get-size-dimension
(get-size-dimension img d)
Return the size along the specified dimension.
get-type
(get-type img)
Return the class type of an image.
get-val
(get-val img position)
Return the value at a given position.
get-width
(get-width img)
Return the width of the img.
gradient
(gradient input dimension)
Calculate the gradient with respect to a dimension using
the central difference method.
hessian-matrix
(hessian-matrix gradients)
Calculate the Hessian matrix, where gradients is a stack of images (presumably gradients).
hyperslice
(hyperslice rai d pos)
Return a n-1 dimensional slice through dimension d at position p.
map-img
(map-img f img1)(map-img f img1 img2)(map-img f img1 img2 & imgs)
Walk all images (as cursors) applying f at each step.
f is a function that operates on cursors in the same order as imgs
If you have an ImagePlus, then use funimage.conversion
Note: this uses threads to avoid some blocking issues.
map-localize-img
(map-localize-img f img1)(map-localize-img f img1 img2)(map-localize-img f img1 img2 & imgs)
Walk all images (as cursors) applying f at each step.
f is a function that operates on cursors in the same order as imgs
If you have an ImagePlus, then use funimage.conversion
Note: this uses threads to avoid some blocking issues.
neighborhood-map-to-center
(neighborhood-map-to-center f radius source dest)
Do a neighborhood walk over an imglib2 img.
Rectangle only
neighborhood-map-to-center!
normalize
(normalize input)
Normalize an image using its minimum and maximum
num-dimensions
(num-dimensions input)
Return the number of dimensions of a EuclideanSpace.
periodic-neighborhood-map-to-center
(periodic-neighborhood-map-to-center f radius source dest)
Do a neighborhood walk over an imglib2 img.
Rectangle only
periodic-neighborhood-map-to-center!
point-distance
(point-distance p1 p2)
Return the distance between two Points
realpoint-distance
(realpoint-distance p1 p2)
Return the distance between two realpoints
replace
(replace img1 img2)
replace-subimg
(replace-subimg img replacement start-position)
Replace a subimage of a larger image with a smaller one.
replace-subimg-with-opacity
(replace-subimg-with-opacity img replacement start-position opacity)
Replace a subimage of a larger image with a smaller one if the replacement is greater than the provided opacity value.
replace-subimg-with-opacity!
set-val
(set-val img position new-val)
Set the value at a given position.
subtract
(subtract img1 img2)
Subtract the second image from the first (destructive).
sum
(sum img)
Take the sum of all pixel values in an image.
tensor-eigen-values
(tensor-eigen-values tensor)
Return the eigenvalues of rank 2 tensors.
threshold
(threshold img threshold)
Binarize an image about a threshold